(Q46322404)

21 December 2017

title

The tree of life: metaphor, model, and heuristic device (English)

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21 December 2017

1

David P Mindell

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21 December 2017

publication date

3 January 2013

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21 December 2017

published in

Systematic Biology

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21 December 2017

volume

62

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21 December 2017

issue

3

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21 December 2017

page(s)

479-489

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21 December 2017

Gene transfer and diversification of microbial eukaryotes

cites work

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Bayesian estimation of concordance among gene trees.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Edward Hitchcock's pre-Darwinian (1840) "tree of life".

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Prokaryotic evolution and the tree of life are two different things

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Do orthologous gene phylogenies really support tree-thinking?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Towards an accurate identification of mosaic genes and partial horizontal gene transfers

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Inferring and validating horizontal gene transfer events using bipartition dissimilarity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Revisiting the concept of lineage in prokaryotes: a phylogenetic perspective.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Phylogenetic and phyletic studies of informational genes in genomes highlight existence of a 4 domain of life including giant viruses

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

More barrels from the viral tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Viruses take center stage in cellular evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Species trees from highly incongruent gene trees in rice.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Rapid evolutionary innovation during an Archaean genetic expansion.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Gene tree discordance, phylogenetic inference and the multispecies coalescent

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Phylogenetic classification and the universal tree

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Pattern pluralism and the Tree of Life hypothesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Is a new and general theory of molecular systematics emerging?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Homology a personal view on some of the problems

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Defining life: the virus viewpoint

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Recombination and the nature of bacterial speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

A model of horizontal gene transfer and the bacterial phylogeny problem

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Massive Horizontal Gene Transfer in Bdelloid Rotifers

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Which is the most conserved group of proteins? Homology-orthology, paralogy, xenology, and the fusion of independent lineages.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Phylogenetic Species, Nested Hierarchies, and Character Fixation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Horizontal gene transfer in eukaryotic evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Evolution of glyoxylate cycle enzymes in Metazoa: evidence of multiple horizontal transfer events and pseudogene formation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The common ancestry of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The Apicomplexan whole-genome phylogeny: an analysis of incongruence among gene trees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Origin and evolution of the mitochondrial proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Coalescent methods for estimating phylogenetic trees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The role of laterally transferred genes in adaptive evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Proving universal common ancestry with similar sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

HYBRIDS AND PHYLOGENETIC SYSTEMATICS I. PATTERNS OF CHARACTER EXPRESSION IN HYBRIDS AND THEIR IMPLICATIONS FOR CLADISTIC ANALYSIS.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

HYBRIDS AND PHYLOGENETIC SYSTEMATICS II. THE IMPACT OF HYBRIDS ON CLADISTIC ANALYSIS.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The prokaryotic tree of life: past, present... and future?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: a model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Phylogenetic consequences of symbioses: Eukarya and Eubacteria are not monophyletic taxa

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

How stands the Tree of Life a century and a half after The Origin?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Darwin's Theory of Descent with Modification, versus the Biblical Tree of Life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Supertrees disentangle the chimerical origin of eukaryotic genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Widespread Discordance of Gene Trees with Species Tree in Drosophila: Evidence for Incomplete Lineage Sorting

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Search for a 'Tree of Life' in the thicket of the phylogenetic forest

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Trees and networks before and after Darwin

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The network of life: genome beginnings and evolution. Introduction

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Phylogenetic inference using whole genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Horizontal gene transfer from Bacteria to rumen Ciliates indicates adaptation to their anaerobic, carbohydrates-rich environment

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Evolution of filamentous plant pathogens: gene exchange across eukaryotic kingdoms.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Why do RNA viruses recombine?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Lateral transfer of the gene for a widely used marker, alpha-tubulin, indicated by a multi-protein study of the phylogenetic position of Andalucia (Excavata).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Horizontal transfer of a nitrate assimilation gene cluster and ecological transitions in fungi: a phylogenetic study

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

The role of hybridization in plant speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Augustin Augier's "Arbre Botanique" (1801), a Remarkable Early Botanical Representation of the Natural System

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Stochastic models for horizontal gene transfer: taking a random walk through tree space

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Evolutionary implications of horizontal gene transfer

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Confounding factors in HGT detection: statistical error, coalescent effects, and multiple solutions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

A formal test of the theory of universal common ancestry

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

On universal common ancestry, sequence similarity, and phylogenetic structure: the sins of P-values and the virtues of Bayesian evidence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Viruses are essential agents within the roots and stem of the tree of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

21 January 2018

A rooted net of life.

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Informational gene phylogenies do not support a fourth domain of life for nucleocytoplasmic large DNA viruses

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

21 January 2018

The universal ancestor

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in marker gene phylogenetic trees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Was the universal common ancestry proved?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Coalescent histories on phylogenetic networks and detection of hybridization despite incomplete lineage sorting

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

Genome mosaicism and organismal lineages.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYS115

21 January 2018

Identifiers

DOI

10.1093/SYSBIO/SYS115

1 reference

21 December 2017

1 reference

21 December 2017